IL_6XIR_146

3D structure

PDB id

6XIR (explore in PDB, NAKB, or RNA 3D Hub)

Description

Cryo-EM Structure of K63 Ubiquitinated Yeast Translocating Ribosome under Oxidative Stress

Experimental method

ELECTRON MICROSCOPY

Resolution

3.2 Å

Loop

Sequence

GUA*UUUUC

Length

8 nucleotides

Bulged bases

6XIR|1|2|U|260

QA status

Valid loop

Sequence variability

If this chain is mapped to an Rfam alignment, the link below will give its sequence variability.

R3DSVS

Structural variability across Equivalence Class

The link below will give the loop's structural variability across the equivalence class for this chain.

R3DMCS EC

Structural variability across Rfam

If this chain is mapped to an Rfam alignment, the link below will give the loop's structural variability between chains mapped to the same Rfam family.

R3DMCS Rfam

IL_6XIR_146 not in the Motif Atlas

Geometric match to IL_3PDR_004

Geometric discrepancy: 0.3897

The information below is about IL_3PDR_004

Detailed Annotation

Major groove platform with extra cWW

Broad Annotation

Major groove platform

Motif group

IL_51387.2

Basepair signature

cWW-cSH-cWW-cWW

Number of instances in this motif group

20

Unit IDs

6XIR|1|2|G|204
6XIR|1|2|U|205
6XIR|1|2|A|206
*
6XIR|1|2|U|259
6XIR|1|2|U|260
6XIR|1|2|U|261
6XIR|1|2|U|262
6XIR|1|2|C|263

Current chains

Chain 2

18S ribosomal RNA

Nearby chains

Chain u

40S ribosomal protein S4-A

Chain y

RPS8A isoform 1